1TOA

PERIPLASMIC ZINC BINDING PROTEIN TROA FROM TREPONEMA PALLIDUM


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.176 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Treponema pallidum TroA is a periplasmic zinc-binding protein with a helical backbone.

Lee, Y.H.Deka, R.K.Norgard, M.V.Radolf, J.D.Hasemann, C.A.

(1999) Nat Struct Biol 6: 628-633

  • DOI: https://doi.org/10.1038/10677
  • Primary Citation of Related Structures:  
    1TOA

  • PubMed Abstract: 

    The crystal structure of recombinant TroA, a zinc-binding protein component of an ATP-binding cassette transport system in Treponema pallidum, was determined at a resolution of 1.8 A. The organization of the protein is largely similar to other periplasmic ligand-binding proteins (PLBP), in that two independent globular domains interact with each other to create a zinc-binding cleft between them. The structure has one bound zinc pentavalently coordinated to residues from both domains. Unlike previous PLBP structures that have an interdomain hinge composed of beta-strands, the N- and C-domains of TroA are linked by a single long backbone helix. This unique backbone helical conformation was possibly adopted to limit the hinge motion associated with ligand exchange.


  • Organizational Affiliation

    Department of Internal Medicine, University of Texas Southwestern Medical Center, Dallas 75235-8884, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
PROTEIN (PERIPLASMIC BINDING PROTEIN TROA)
A, B
313Treponema pallidumMutation(s): 0 
UniProt
Find proteins for P96116 (Treponema pallidum (strain Nichols))
Explore P96116 
Go to UniProtKB:  P96116
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP96116
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.176 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 126.2α = 90
b = 126.2β = 90
c = 74.48γ = 120
Software Package:
Software NamePurpose
MLPHAREphasing
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1999-07-05
    Type: Initial release
  • Version 1.1: 2007-10-16
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.3: 2023-12-27
    Changes: Data collection, Database references, Derived calculations